Pycytominer

Pycytominer is the core Python package in the Cytomining ecosystem. It provides a clean, composable API for processing single-cell morphology profiles produced by tools like CellProfiler.

Key capabilities:

• Aggregate single-cell data to well- or treatment-level profiles
• Annotate profiles with experimental metadata
• Normalize features using population-level statistics
• Select high-quality features and remove noise
• Output analysis-ready profiles in standard formats

View documentation → · View on GitHub →

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